Oral microbiome dysbiosis among cigarette smokers and smokeless tobacco users compared to non-users/Experiment 18
From BugSigDB
Reviewed Marked as Reviewed by KateRasheed on 2025-7-31
Subjects
- Location of subjects
- United States of America
- Host species Species from which microbiome was sampled. Contact us to have more species added.
- Homo sapiens
- Body site Anatomical site where microbial samples were extracted from according to the Uber Anatomy Ontology
- Saliva Sailva normalis,Saliva atomaris,Saliva molecularis,Salivary gland secretion,Saliva,saliva
- Condition The experimental condition / phenotype studied according to the Experimental Factor Ontology
- Smoking behaviour measurement Smoking behaviour measurement,smoking behaviour measurement
- Group 0 name Corresponds to the control (unexposed) group for case-control studies
- Non-tobacco users (NU)
- Group 1 name Corresponds to the case (exposed) group for case-control studies
- Smokeless tobacco user (ST)
- Group 1 definition Diagnostic criteria applied to define the specific condition / phenotype represented in the case (exposed) group
- Participants in this group had used tobacco at least once per week for the previous year.
- Group 0 sample size Number of subjects in the control (unexposed) group
- 43
- Group 1 sample size Number of subjects in the case (exposed) group
- 18
- Antibiotics exclusion Number of days without antibiotics usage (if applicable) and other antibiotics-related criteria used to exclude participants (if any)
- 6 months
Lab analysis
- Sequencing type
- 16S
- 16S variable region One or more hypervariable region(s) of the bacterial 16S gene
- V3-V4
- Sequencing platform Manufacturer and experimental platform used for quantifying microbial abundance
- Illumina
Statistical Analysis
- Data transformation Data transformation applied to microbial abundance measurements prior to differential abundance testing (if any).
- raw counts
- Statistical test
- DESeq2
- Significance threshold p-value or FDR threshold used for differential abundance testing (if any)
- 0.05
- MHT correction Have statistical tests be corrected for multiple hypothesis testing (MHT)?
- No
- Matched on Factors on which subjects have been matched on in a case-control study
- age, race, sex
Alpha Diversity
- Shannon Estimator of species richness and species evenness: more weight on species richness
- unchanged
Signature 1
Reviewed Marked as Reviewed by KateRasheed on 2025-7-31
Source: Figure 6b
Description: Relative abundance of bacterial OTUs in saliva samples that was statistically significantly different (α = 0.001) between non-users (NU) and smokeless tobacco users (ST).
Abundance in Group 1: increased abundance in Smokeless tobacco user (ST)
| NCBI | Quality Control | Links |
|---|---|---|
| unclassified Leptotrichia | ||
| Treponema amylovorum | ||
| Porphyromonas endodontalis | ||
| unclassified Streptococcus | ||
| unclassified Streptococcaceae |
Revision editor(s): Victoria
Signature 2
Reviewed Marked as Reviewed by KateRasheed on 2025-7-31
Source: Figure 6b
Description: Relative abundance of bacterial OTUs in saliva samples that was statistically significantly different (α = 0.001) between non-users (NU) and smokeless tobacco users (ST).
Abundance in Group 1: decreased abundance in Smokeless tobacco user (ST)
| NCBI | Quality Control | Links |
|---|---|---|
| unclassified Prevotella | ||
| unclassified Actinomyces | ||
| Escherichia coli | ||
| unclassified Neisseria | ||
| unclassified Corynebacterium |
Revision editor(s): Victoria
